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List of works by Mario A. Fares

A Sliding Window-Based Method to Detect Selective Constraints in Protein-Coding Genes and Its Application to RNA Viruses

article

A Study of the Coevolutionary Patterns Operating within the env Gene of the HIV-1 Group M Subtypes

article

A novel method for detecting intramolecular coevolution: adding a further dimension to selective constraints analyses.

scientific article

A revised evolutionary history of hepatitis B virus (HBV).

scientific article published in June 2002

Adaptive covariation between the coat and movement proteins of prunus necrotic ringspot virus

scientific article

Adaptive evolution in GroEL from distantly related endosymbiotic bacteria of insects.

scientific article

Artifactual phylogenies caused by correlated distribution of substitution rates among sites and lineages: the good, the bad, and the ugly

scientific article published in February 2007

CAPS: coevolution analysis using protein sequences.

scientific article

Chance and necessity in the genome evolution of endosymbiotic bacteria of insects

scientific article published on 21 March 2017

Chaperonin 60: a paradoxical, evolutionarily conserved protein family with multiple moonlighting functions.

scientific article published on 29 March 2013

ChloroMitoSSRDB: open source repository of perfect and imperfect repeats in organelle genomes for evolutionary genomics

scientific article published on 2 January 2013

Coevolution analyses illuminate the dependencies between amino acid sites in the chaperonin system GroES-L.

scientific article

Comparative genomic analysis of a mammalian β-defensin gene cluster

article

Computational biology methods and their application to the comparative genomics of endocellular symbiotic bacteria of insects.

scientific article

Describing the structural robustness landscape of bacterial small RNAs.

scientific article

Endosymbiotic bacteria: groEL buffers against deleterious mutations

scientific article (publication date: 23 May 2002)

Evidence of positively selected sites in mammalian alpha-defensins

scientific article published on 12 February 2004

Evolution of flower shape in Plantago lanceolata

scientific article published on 11 July 2009

Evolutionary rate and duplicability in the Arabidopsis thaliana protein-protein interaction network.

scientific article published on January 2012

Fitness Trade-Offs Determine the Role of the Molecular Chaperonin GroEL in Buffering Mutations

scientific article

Functional coevolutionary networks of the Hsp70-Hop-Hsp90 system revealed through computational analyses

scientific article published on 30 January 2007

Functional conservation of an ancestral Pellino protein in helminth species

scientific article published on 29 June 2015

Functional diversification of the twin-arginine translocation pathway mediates the emergence of novel ecological adaptations

scientific article published on 14 June 2011

GRAST: a new way of genome reduction analysis using comparative genomics

scientific article published on 6 April 2006

Genome-wide functional divergence after the symbiosis of proteobacteria with insects unraveled through a novel computational approach

scientific article

GroEL and the maintenance of bacterial endosymbiosis

scientific article published in September 2004

Group 1 LEA proteins, an ancestral plant protein group, are also present in other eukaryotes, and in the archeae and bacteria domains.

scientific article published on 17 July 2013

In silico identification of functional divergence between the multiple groEL gene paralogs in Chlamydiae

scientific article

Molecular evolution of rbcL in three gymnosperm families: identifying adaptive and coevolutionary patterns

scientific article (publication date: 3 June 2011)

Molecular evolution of viral multifunctional proteins: the case of potyvirus HC-Pro.

scientific article published on 23 November 2013

Molecular evolutionary mechanisms driving functional diversification of the HSP90A family of heat shock proteins in eukaryotes

scientific article published on 27 June 2013

Mutational dynamics of murine angiogenin duplicates.

scientific article

No rosetta stone for a sense-antisense origin of aminoacyl tRNA synthetase classes

scientific article published on 26 November 2008

Pivotal Advance: Avian colony-stimulating factor 1 (CSF-1), interleukin-34 (IL-34), and CSF-1 receptor genes and gene products

scientific article published on 5 January 2010

Positive selection and subfunctionalization of duplicated CCT chaperonin subunits

scientific article published on 27 June 2003

Protein coadaptation and the design of novel approaches to identify protein-protein interactions.

scientific article published on April 2011

Proteome-wide analysis of functional divergence in bacteria: exploring a host of ecological adaptations

scientific article

Rate asymmetry after genome duplication causes substantial long-branch attraction artifacts in the phylogeny of Saccharomyces species

scientific article published on 5 October 2005

Relationships of gag-pol diversity between Ty3/Gypsy and Retroviridae LTR retroelements and the three kings hypothesis

scientific article (publication date: 8 October 2008)

SWAPSC: sliding window analysis procedure to detect selective constraints

scientific article published on 6 May 2004

Selection for translational robustness in Buchnera aphidicola, endosymbiotic bacteria of aphids

scientific article published on 06 January 2009

Selection on coding regions determined Hox7 genes evolution

scientific article published on 29 August 2003

Structural calibration of the rates of amino acid evolution in a search for Darwin in drifting biological systems.

scientific article published on 13 May 2010

Survival and innovation: The role of mutational robustness in evolution.

scientific article

Testing the Neutral Fixation of Hetero-Oligomerism in the Archaeal Chaperonin CCT

scientific article published on 03 April 2007

The Phenotypic Plasticity of Duplicated Genes in Saccharomyces cerevisiae and the Origin of Adaptations

scientific article published on 31 October 2016

The effect of chaperonin buffering on protein evolution ⬇️

scientific article published on 21 July 2010

The evolution of protein moonlighting: adaptive traps and promiscuity in the chaperonins.

scientific article

The evolution of the flagellar assembly pathway in endosymbiotic bacterial genomes.

scientific article published on 17 July 2008

The origins of mutational robustness

scientific article published on 23 May 2015

The roles of whole-genome and small-scale duplications in the functional specialization of Saccharomyces cerevisiae genes.

scientific article

Transcriptional Rewiring, Adaptation, and the Role of Gene Duplication in the Metabolism of Ethanol of Saccharomyces cerevisiae

scientific article published on 11 August 2020

Two chaperonin systems in bacterial genomes with distinct ecological roles

scientific article published on 28 December 2009

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